Citrus Sinensis ID: 024108

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270--
MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
ccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccHHHHHHHHHccEEEEEcEEEcccccccccEEEEEEccccccEEEEEEccccEEEEEccHHHHHHHHHccEEEEEEEEEEEEEEcccEEEEEEccEEEEEcccccccccEEEEEcccccEEEEEEEEcccEEEEEccccEEEEEEEEEEEEEEccccEEEEEcccccEEEEEEcEEEEEEcccccEEEccccccEEEEHHHHHHHHHHHHHHHHcc
cccccHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccHHHHHHHHHcccEEEccEEcccccccccEEEEEEEccccccEEEEEccccEEEEEEccHHHHHHHHHccccEEEEEEEEEEcccccEEEEEccccEEEcccccEEcccEEEEEcccccEEEEEEcccccEEEEEccccccEEEEEEEEEcccccccEEEEEEccccEEEEEcccEEEEEcccccEEEccccccEEEHHHHHHHHHHHHHHHcccc
MARGLKKHLKrlnapkhwmldklggafapkpssgphksreclPLILILRNRLKYALTYREVIAILMQRHVLVDakvrtdktypagfmdvvsipktnenFRLLYDtkgrfrlhsIRDEEAKALILLFQFKLckvrsvqfgqkgipyintydgrtirypdplikandtikldlETNKITEFIKFDVGNVVMVTggrnrgrvgiiknrekhkgsfeTIHIQDALGHEFATRLGNvftigkgtkpwvslpkgkgikLSIIEEARKRQALATSAAAQ
MARGLKKHLKRLNAPKHWMLDKLGGafapkpssgphksrECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTdktypagfmdvvsipktnenFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVrsvqfgqkgipyintydgrtirYPDPLIKANDTIKLDLETNKItefikfdvgnvvmvtggrnrgrvgiiknrekhkgsFETIHIQDALGHEFATRLGNVFTigkgtkpwvslpkgkGIKLSIIEEARKRQALATSAAAQ
MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
*****************WMLDK*****************ECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSII****************
******K***RLNAPKHWMLDKLGGAF***********RECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSII****************
********LKRLNAPKHWMLDKLGGAFA*********SRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEAR************
****LKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALA******
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query272 2.2.26 [Sep-21-2011]
Q8VYK6262 40S ribosomal protein S4- yes no 0.963 1.0 0.892 1e-141
P49204262 40S ribosomal protein S4- yes no 0.963 1.0 0.892 1e-141
P46300264 40S ribosomal protein S4 N/A no 0.970 1.0 0.874 1e-140
Q93VH9261 40S ribosomal protein S4- yes no 0.937 0.977 0.908 1e-140
P46299262 40S ribosomal protein S4 N/A no 0.963 1.0 0.888 1e-138
O22424265 40S ribosomal protein S4 N/A no 0.941 0.966 0.893 1e-138
P49398265 40S ribosomal protein S4 yes no 0.941 0.966 0.885 1e-137
O81363261 40S ribosomal protein S4 N/A no 0.922 0.961 0.881 1e-133
P47961263 40S ribosomal protein S4 yes no 0.966 1.0 0.674 1e-105
P79103263 40S ribosomal protein S4 yes no 0.966 1.0 0.674 1e-105
>sp|Q8VYK6|RS43_ARATH 40S ribosomal protein S4-3 OS=Arabidopsis thaliana GN=RPS4D PE=2 SV=2 Back     alignment and function desciption
 Score =  500 bits (1287), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 242/271 (89%), Positives = 254/271 (93%), Gaps = 9/271 (3%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPL+LI+RNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VI+ILMQRH+ VD KVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSI+DEEAK
Sbjct: 61  VISILMQRHIQVDGKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAK 120

Query: 121 ALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFI 180
                  FKLCKVRS+QFGQKGIPY+NTYDGRTIRYPDPLIK NDTIKLDLE NKI EFI
Sbjct: 121 -------FKLCKVRSIQFGQKGIPYLNTYDGRTIRYPDPLIKPNDTIKLDLEANKIVEFI 173

Query: 181 KFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK 240
           KFDVGNVVMVTGGRNRGRVG+IKNREKHKGSFETIHIQD+ GHEFATRLGNV+TIGKGTK
Sbjct: 174 KFDVGNVVMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRLGNVYTIGKGTK 233

Query: 241 PWVSLPKGKGIKLSIIEEARKRQALATSAAA 271
           PWVSLPKGKGIKL+IIEEARKR  LA+  AA
Sbjct: 234 PWVSLPKGKGIKLTIIEEARKR--LASQQAA 262

Arabidopsis thaliana (taxid: 3702)
>sp|P49204|RS42_ARATH 40S ribosomal protein S4-2 OS=Arabidopsis thaliana GN=RPS4B PE=2 SV=4 Back     alignment and function description
>sp|P46300|RS4_SOLTU 40S ribosomal protein S4 OS=Solanum tuberosum GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|Q93VH9|RS41_ARATH 40S ribosomal protein S4-1 OS=Arabidopsis thaliana GN=RPS4A PE=2 SV=1 Back     alignment and function description
>sp|P46299|RS4_GOSHI 40S ribosomal protein S4 OS=Gossypium hirsutum GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|O22424|RS4_MAIZE 40S ribosomal protein S4 OS=Zea mays GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|P49398|RS4_ORYSJ 40S ribosomal protein S4 OS=Oryza sativa subsp. japonica GN=RPS4 PE=2 SV=3 Back     alignment and function description
>sp|O81363|RS4_PRUAR 40S ribosomal protein S4 OS=Prunus armeniaca GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|P47961|RS4_CRIGR 40S ribosomal protein S4 OS=Cricetulus griseus GN=RPS4 PE=2 SV=2 Back     alignment and function description
>sp|P79103|RS4_BOVIN 40S ribosomal protein S4 OS=Bos taurus GN=RPS4 PE=2 SV=3 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query272
255543308263 40S ribosomal protein S4, putative [Rici 0.966 1.0 0.929 1e-144
255549228263 40S ribosomal protein S4, putative [Rici 0.966 1.0 0.925 1e-144
449509213264 PREDICTED: 40S ribosomal protein S4-like 0.970 1.0 0.918 1e-143
357468567264 40S ribosomal protein S4 [Medicago trunc 0.970 1.0 0.911 1e-143
224087813263 predicted protein [Populus trichocarpa] 0.966 1.0 0.903 1e-142
449465358264 PREDICTED: 40S ribosomal protein S4-like 0.970 1.0 0.911 1e-142
192912988265 40S ribosomal protein S4 [Elaeis guineen 0.966 0.992 0.911 1e-142
356496247264 PREDICTED: 40S ribosomal protein S4-like 0.970 1.0 0.907 1e-142
356559288264 PREDICTED: 40S ribosomal protein S4-1-li 0.970 1.0 0.904 1e-141
192912992265 40S ribosomal protein S4 [Elaeis guineen 0.970 0.996 0.915 1e-141
>gi|255543308|ref|XP_002512717.1| 40S ribosomal protein S4, putative [Ricinus communis] gi|223548678|gb|EEF50169.1| 40S ribosomal protein S4, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  517 bits (1332), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 251/270 (92%), Positives = 259/270 (95%), Gaps = 7/270 (2%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRD+EAK
Sbjct: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDDEAK 120

Query: 121 ALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFI 180
                  FKLCKVRSVQFGQKGIPY+NTYDGRTIRYPDPLIKANDTIKLDLE+NKITEFI
Sbjct: 121 -------FKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPLIKANDTIKLDLESNKITEFI 173

Query: 181 KFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK 240
           KFDVGNVVMVTGGRNRGRVG+IKNREKHKGSFETIHIQD+ GHEFATR+GNVFTIGKGTK
Sbjct: 174 KFDVGNVVMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRMGNVFTIGKGTK 233

Query: 241 PWVSLPKGKGIKLSIIEEARKRQALATSAA 270
           PWVSLPKGKGIKLSIIEEARKR A + +AA
Sbjct: 234 PWVSLPKGKGIKLSIIEEARKRLAASQTAA 263

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255549228|ref|XP_002515668.1| 40S ribosomal protein S4, putative [Ricinus communis] gi|223545211|gb|EEF46720.1| 40S ribosomal protein S4, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449509213|ref|XP_004163526.1| PREDICTED: 40S ribosomal protein S4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|357468567|ref|XP_003604568.1| 40S ribosomal protein S4 [Medicago truncatula] gi|355505623|gb|AES86765.1| 40S ribosomal protein S4 [Medicago truncatula] Back     alignment and taxonomy information
>gi|224087813|ref|XP_002308235.1| predicted protein [Populus trichocarpa] gi|222854211|gb|EEE91758.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449465358|ref|XP_004150395.1| PREDICTED: 40S ribosomal protein S4-like [Cucumis sativus] gi|449496881|ref|XP_004160252.1| PREDICTED: 40S ribosomal protein S4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|192912988|gb|ACF06602.1| 40S ribosomal protein S4 [Elaeis guineensis] Back     alignment and taxonomy information
>gi|356496247|ref|XP_003516980.1| PREDICTED: 40S ribosomal protein S4-like [Glycine max] Back     alignment and taxonomy information
>gi|356559288|ref|XP_003547932.1| PREDICTED: 40S ribosomal protein S4-1-like [Glycine max] Back     alignment and taxonomy information
>gi|192912992|gb|ACF06604.1| 40S ribosomal protein S4 [Elaeis guineensis] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query272
TAIR|locus:2171198262 AT5G58420 [Arabidopsis thalian 0.963 1.0 0.892 1.7e-128
TAIR|locus:2169339262 AT5G07090 [Arabidopsis thalian 0.963 1.0 0.892 2.2e-128
TAIR|locus:2827612261 AT2G17360 [Arabidopsis thalian 0.937 0.977 0.908 7.6e-128
UNIPROTKB|P79103263 RPS4 "40S ribosomal protein S4 0.963 0.996 0.676 5.2e-97
UNIPROTKB|F2Z4Q1263 RPS4X "Uncharacterized protein 0.963 0.996 0.676 5.2e-97
UNIPROTKB|J9P5V0267 J9P5V0 "Uncharacterized protei 0.963 0.981 0.676 5.2e-97
UNIPROTKB|P62701263 RPS4X "40S ribosomal protein S 0.963 0.996 0.676 5.2e-97
UNIPROTKB|F1RQ91263 RPS4X "Uncharacterized protein 0.963 0.996 0.676 5.2e-97
UNIPROTKB|P62704263 RPS4X "40S ribosomal protein S 0.963 0.996 0.676 5.2e-97
UNIPROTKB|P62705263 RPS4X "40S ribosomal protein S 0.963 0.996 0.676 5.2e-97
TAIR|locus:2171198 AT5G58420 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1261 (449.0 bits), Expect = 1.7e-128, P = 1.7e-128
 Identities = 242/271 (89%), Positives = 254/271 (93%)

Query:     1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
             MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPL+LI+RNRLKYALTYRE
Sbjct:     1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60

Query:    61 VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
             VI+ILMQRH+ VD KVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSI+DEEAK
Sbjct:    61 VISILMQRHIQVDGKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAK 120

Query:   121 ALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFI 180
                    FKLCKVRS+QFGQKGIPY+NTYDGRTIRYPDPLIK NDTIKLDLE NKI EFI
Sbjct:   121 -------FKLCKVRSIQFGQKGIPYLNTYDGRTIRYPDPLIKPNDTIKLDLEANKIVEFI 173

Query:   181 KFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK 240
             KFDVGNVVMVTGGRNRGRVG+IKNREKHKGSFETIHIQD+ GHEFATRLGNV+TIGKGTK
Sbjct:   174 KFDVGNVVMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRLGNVYTIGKGTK 233

Query:   241 PWVSLPKGKGIKLSIIEEARKRQALATSAAA 271
             PWVSLPKGKGIKL+IIEEARKR  LA+  AA
Sbjct:   234 PWVSLPKGKGIKLTIIEEARKR--LASQQAA 262
GO:0003723 "RNA binding" evidence=IEA
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005622 "intracellular" evidence=IEA
GO:0005737 "cytoplasm" evidence=ISM
GO:0005840 "ribosome" evidence=IEA
GO:0006412 "translation" evidence=IEA;ISS
GO:0022627 "cytosolic small ribosomal subunit" evidence=ISS;IDA
GO:0005730 "nucleolus" evidence=IDA
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0016020 "membrane" evidence=IDA
GO:0005829 "cytosol" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=RCA
GO:0001510 "RNA methylation" evidence=RCA
TAIR|locus:2169339 AT5G07090 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2827612 AT2G17360 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P79103 RPS4 "40S ribosomal protein S4" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z4Q1 RPS4X "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|J9P5V0 J9P5V0 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P62701 RPS4X "40S ribosomal protein S4, X isoform" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1RQ91 RPS4X "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|P62704 RPS4X "40S ribosomal protein S4, X isoform" [Mesocricetus auratus (taxid:10036)] Back     alignment and assigned GO terms
UNIPROTKB|P62705 RPS4X "40S ribosomal protein S4, X isoform" [Felis catus (taxid:9685)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
O81363RS4_PRUARNo assigned EC number0.88160.92270.9616N/Ano
Q76N24RS4X_CHLAENo assigned EC number0.67400.96691.0N/Ano
Q861U7RS4Y1_PONPYNo assigned EC number0.64810.96691.0N/Ano
Q9N3X2RS4_CAEELNo assigned EC number0.61830.93750.9845yesno
P47836RS4_CHICKNo assigned EC number0.67030.96691.0yesno
P47837RS4_CANAXNo assigned EC number0.64520.94480.9809N/Ano
O59950RS4_YARLINo assigned EC number0.66660.94480.9884yesno
Q8VYK6RS43_ARATHNo assigned EC number0.89290.96321.0yesno
Q95V34RS4_SPOFRNo assigned EC number0.65070.96691.0N/Ano
Q8SRB9RS4_ENCCUNo assigned EC number0.40540.91540.9291yesno
Q56FH2RS4_LYSTENo assigned EC number0.65900.94480.9809N/Ano
P49204RS42_ARATHNo assigned EC number0.89290.96321.0yesno
Q9P4W9RS4C_SCHPONo assigned EC number0.68300.94850.9847yesno
P0CX36RS4B_YEASTNo assigned EC number0.65900.94480.9846yesno
P49401RS4_XENLANo assigned EC number0.67030.96691.0N/Ano
Q76MY1RS4X_MACFUNo assigned EC number0.67400.96691.0N/Ano
Q861V0RS4Y1_PANPANo assigned EC number0.64070.96691.0N/Ano
Q4GXU6RS4_CARGRNo assigned EC number0.65160.95580.9961N/Ano
Q90YS0RS4_ICTPUNo assigned EC number0.66290.96691.0N/Ano
Q5UAP0RS4_BOMMONo assigned EC number0.66540.96691.0N/Ano
P0C233RS4_TETTHNo assigned EC number0.55300.93380.9806N/Ano
P79103RS4_BOVINNo assigned EC number0.67400.96691.0yesno
O22424RS4_MAIZENo assigned EC number0.89350.94110.9660N/Ano
P47961RS4_CRIGRNo assigned EC number0.67400.96691.0yesno
P79183RS4Y1_MACFUNo assigned EC number0.64810.96691.0N/Ano
P46300RS4_SOLTUNo assigned EC number0.87450.97051.0N/Ano
O62739RS4Y1_MONDONo assigned EC number0.66290.96691.0yesno
O62738RS4X_MONDONo assigned EC number0.67800.94480.9771yesno
P49398RS4_ORYSJNo assigned EC number0.88590.94110.9660yesno
Q93VH9RS41_ARATHNo assigned EC number0.90830.93750.9770yesno
P41042RS4_DROMENo assigned EC number0.65160.95580.9961yesno
Q861U8RS4Y1_GORGONo assigned EC number0.64070.96691.0N/Ano
Q6PBC4RS4_XENTRNo assigned EC number0.67030.96691.0yesno
P62703RS4X_RATNo assigned EC number0.67400.96691.0yesno
P62702RS4X_MOUSENo assigned EC number0.67400.96691.0yesno
P62705RS4X_FELCANo assigned EC number0.67400.96691.0N/Ano
P62704RS4X_MESAUNo assigned EC number0.67400.96691.0N/Ano
P51405RS4_DICDINo assigned EC number0.64720.92270.9400yesno
Q9USW5RS4B_SCHPONo assigned EC number0.68300.94850.9847yesno
P62701RS4X_HUMANNo assigned EC number0.67400.96691.0yesno
P0CX35RS4A_YEASTNo assigned EC number0.65900.94480.9846yesno
P46299RS4_GOSHINo assigned EC number0.88840.96321.0N/Ano
Q4PMB3RS4_IXOSCNo assigned EC number0.66790.93750.9732N/Ano
Q642H9RS4X_DANRENo assigned EC number0.66290.96691.0yesno
P87158RS4A_SCHPONo assigned EC number0.68300.94850.9847yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query272
PLN00036261 PLN00036, PLN00036, 40S ribosomal protein S4; Prov 0.0
PTZ00118262 PTZ00118, PTZ00118, 40S ribosomal protein S4; Prov 1e-126
COG1471241 COG1471, RPS4A, Ribosomal protein S4E [Translation 1e-113
PTZ00223273 PTZ00223, PTZ00223, 40S ribosomal protein S4; Prov 1e-88
PRK04313237 PRK04313, PRK04313, 30S ribosomal protein S4e; Val 4e-73
pfam0090077 pfam00900, Ribosomal_S4e, Ribosomal family S4e 2e-34
cd0608755 cd06087, KOW_RPS4, KOW motif of Ribosomal Protein 8e-30
pfam0807138 pfam08071, RS4NT, RS4NT (NUC023) domain 4e-17
cd0016570 cd00165, S4, S4/Hsp/ tRNA synthetase RNA-binding d 6e-04
pfam0046732 pfam00467, KOW, KOW motif 9e-04
>gnl|CDD|177670 PLN00036, PLN00036, 40S ribosomal protein S4; Provisional Back     alignment and domain information 
 Score =  503 bits (1298), Expect = 0.0
 Identities = 233/264 (88%), Positives = 245/264 (92%), Gaps = 7/264 (2%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHK RECLPL+LILRNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKKRECLPLLLILRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           V AILMQRHV VD KVRTDKTYPAGFMDV+SIPKTNENFRLLYDTKGRFRLH I DEEAK
Sbjct: 61  VQAILMQRHVKVDGKVRTDKTYPAGFMDVISIPKTNENFRLLYDTKGRFRLHRINDEEAK 120

Query: 121 ALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFI 180
                  FKLCKVR +QFGQKGIPY+NT+DGRTIRYPDPLIKANDTIK+DLETNKI +FI
Sbjct: 121 -------FKLCKVRKIQFGQKGIPYLNTHDGRTIRYPDPLIKANDTIKIDLETNKIVDFI 173

Query: 181 KFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK 240
           KFDVGN+VMVTGGRNRGRVG+IKNREKHKGSFE IH++DA GHEFATRLGNVF IGKGTK
Sbjct: 174 KFDVGNLVMVTGGRNRGRVGVIKNREKHKGSFEIIHVKDATGHEFATRLGNVFVIGKGTK 233

Query: 241 PWVSLPKGKGIKLSIIEEARKRQA 264
           PW+SLPKGKGIKLSIIEEARKR A
Sbjct: 234 PWISLPKGKGIKLSIIEEARKRLA 257

Length = 261
>gnl|CDD|240277 PTZ00118, PTZ00118, 40S ribosomal protein S4; Provisional Back     alignment and domain information
>gnl|CDD|224388 COG1471, RPS4A, Ribosomal protein S4E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|140250 PTZ00223, PTZ00223, 40S ribosomal protein S4; Provisional Back     alignment and domain information
>gnl|CDD|179820 PRK04313, PRK04313, 30S ribosomal protein S4e; Validated Back     alignment and domain information
>gnl|CDD|189761 pfam00900, Ribosomal_S4e, Ribosomal family S4e Back     alignment and domain information
>gnl|CDD|240511 cd06087, KOW_RPS4, KOW motif of Ribosomal Protein S4 (RPS4) Back     alignment and domain information
>gnl|CDD|191938 pfam08071, RS4NT, RS4NT (NUC023) domain Back     alignment and domain information
>gnl|CDD|238095 cd00165, S4, S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes Back     alignment and domain information
>gnl|CDD|144165 pfam00467, KOW, KOW motif Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 272
PLN00036261 40S ribosomal protein S4; Provisional 100.0
PTZ00118262 40S ribosomal protein S4; Provisional 100.0
PTZ00223273 40S ribosomal protein S4; Provisional 100.0
PRK04313237 30S ribosomal protein S4e; Validated 100.0
COG1471241 RPS4A Ribosomal protein S4E [Translation, ribosoma 100.0
KOG0378263 consensus 40S ribosomal protein S4 [Translation, r 100.0
PF0090077 Ribosomal_S4e: Ribosomal family S4e; InterPro: IPR 100.0
PF0807138 RS4NT: RS4NT (NUC023) domain; InterPro: IPR013843 99.8
PF0147948 S4: S4 domain; InterPro: IPR002942 Ribosomes are t 98.49
cd0016570 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The 97.53
smart0036360 S4 S4 RNA-binding domain. 97.14
PF0046732 KOW: KOW motif; InterPro: IPR005824 Ribosomes are 96.74
COG0522205 RpsD Ribosomal protein S4 and related proteins [Tr 96.68
smart0073928 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i 96.68
TIGR0298859 YaaA_near_RecF S4 domain protein YaaA. This small 96.62
PF1327565 S4_2: S4 domain; PDB: 1P9K_A. 95.89
PRK1150770 ribosome-associated protein; Provisional 95.63
TIGR01018162 rpsD_arch ribosomal protein S4(archaeal type)/S9(e 95.16
PTZ00155181 40S ribosomal protein S9; Provisional 94.96
PRK04051177 rps4p 30S ribosomal protein S4P; Validated 94.87
PLN00189194 40S ribosomal protein S9; Provisional 94.81
TIGR01017200 rpsD_bact ribosomal protein S4, bacterial/organell 94.78
TIGR01080114 rplX_A_E ribosomal protein L24p/L26e, archaeal/euk 94.73
TIGR00005299 rluA_subfam pseudouridine synthase, RluA family. m 94.59
PRK05327203 rpsD 30S ribosomal protein S4; Validated 94.51
CHL00113201 rps4 ribosomal protein S4; Reviewed 94.28
TIGR03069257 PS_II_S4 photosystem II S4 domain protein. Members 93.97
TIGR00478228 tly hemolysin TlyA family protein. Hemolysins are 93.11
COG250173 S4-like RNA binding protein [Replication, recombin 92.25
COG0564289 RluA Pseudouridylate synthases, 23S RNA-specific [ 91.74
PRK01191120 rpl24p 50S ribosomal protein L24P; Validated 91.65
PRK11180325 rluD 23S rRNA pseudouridine synthase D; Provisiona 91.61
PRK05912408 tyrosyl-tRNA synthetase; Validated 90.5
PRK10700289 23S rRNA pseudouridylate synthase B; Provisional 90.43
PRK10348133 ribosome-associated heat shock protein Hsp15; Prov 89.8
PTZ00194143 60S ribosomal protein L26; Provisional 89.0
COG1187248 RsuA 16S rRNA uridine-516 pseudouridylate synthase 88.14
PRK10475290 23S rRNA pseudouridine synthase F; Provisional 87.87
PRK11025317 23S rRNA pseudouridylate synthase C; Provisional 87.75
PRK1228176 rplX 50S ribosomal protein L24; Reviewed 87.01
PRK10839232 16S rRNA pseudouridylate synthase A; Provisional 86.4
CHL0014183 rpl24 ribosomal protein L24; Validated 86.09
PRK13354410 tyrosyl-tRNA synthetase; Provisional 85.79
PRK00004105 rplX 50S ribosomal protein L24; Reviewed 85.14
PLN00051267 RNA-binding S4 domain-containing protein; Provisio 84.35
COG1189245 Predicted rRNA methylase [Translation, ribosomal s 84.14
COG2302257 Uncharacterized conserved protein, contains S4-lik 82.4
>PLN00036 40S ribosomal protein S4; Provisional Back     alignment and domain information 
Probab=100.00  E-value=4.2e-117  Score=809.14  Aligned_cols=260  Identities=90%  Similarity=1.398  Sum_probs=257.4

Q ss_pred             CCCCcccccccccCCCceecccccceeccCCCCCCCCCcccchHHHHHHhhhcccccHHHHHHHHhCceEEECCEEeccc
Q 024108            1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDK   80 (272)
Q Consensus         1 MarG~kkHlKRl~AP~~W~i~kk~~~~a~kpspGPH~~~~slPL~i~LRd~LkyA~t~rEak~Il~~g~V~VDGkvr~D~   80 (272)
                      ||||||+|||||+||+||||+||+++||||||||||++++||||++||||+|+||+|++||++||+||+|+|||+||||+
T Consensus         1 m~~g~kkHlKRl~AP~~W~l~kk~g~~a~rpspGPH~~~eslPL~i~LRd~LkyA~t~rEak~Il~~~~V~VDGkvr~D~   80 (261)
T PLN00036          1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKKRECLPLLLILRNRLKYALTYREVQAILMQRHVKVDGKVRTDK   80 (261)
T ss_pred             CCCCcccccccccCccccccccccCeeccCCCCCCCccccccccHHHHHhHhhhhccHHHHHHHHhCCeEEECCEEeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcceeEEEeccCCceEEEEEcCCCceEEEEcChHhHhhhhccceeeEEEEEeEEEeeCCceEEEccCCeeeecCCCC
Q 024108           81 TYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPL  160 (272)
Q Consensus        81 k~PvG~mDVIsI~kt~e~yRvl~d~kgrf~l~~I~~eEa~~~~~~~~~KLcKV~~k~~~~~g~~ql~~hDGrni~~~d~~  160 (272)
                      +||||||||||||++||+|||+||++|||.+|+|++|||+       ||||||++|+++++|+|||+|||||||+|+||.
T Consensus        81 ~fPvG~mDVIsI~kt~e~yRvl~D~kGrf~l~~I~~eeA~-------~KLcKV~~k~~~~gG~~ql~~hDGrni~~~d~~  153 (261)
T PLN00036         81 TYPAGFMDVISIPKTNENFRLLYDTKGRFRLHRINDEEAK-------FKLCKVRKIQFGQKGIPYLNTHDGRTIRYPDPL  153 (261)
T ss_pred             CCCCceeEEEEEcCCCCeEEEEECCCceEEEEEcChHHcc-------ceEEEEEEEEEecCCeEEEEecCCceeccCCCc
Confidence            9999999999999999999999999999999999999999       999999999999999999999999999999999


Q ss_pred             cccCCeEEEecCCCceeeEEeecCCcEEEEECCCcceeEEEEEeEEEecCCccEEEEEcCCCCeEeEeeceEEEEccCCC
Q 024108          161 IKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK  240 (272)
Q Consensus       161 ik~~Dtv~i~l~~~kI~~~ikf~~G~~~~v~gG~n~G~vG~I~~i~~~~~s~~~V~i~d~~g~~F~T~~~~vfvIGk~~k  240 (272)
                      ||+||||+||||+++|++||||++||+||||||+|+|++|+|.+|+++++|+++||++|++|++|+|+++||||||++++
T Consensus       154 ~k~~Dtv~i~l~~~kI~~~ikfe~G~l~~vtgG~n~GrvG~I~~i~~~~~~~~iV~i~d~~g~~F~T~~~~vfvIG~~~k  233 (261)
T PLN00036        154 IKANDTIKIDLETNKIVDFIKFDVGNLVMVTGGRNRGRVGVIKNREKHKGSFEIIHVKDATGHEFATRLGNVFVIGKGTK  233 (261)
T ss_pred             cccCCEEEEeCCCCceeeEEecCCCCEEEEECCeeceeEEEEEEEEecCCCCCEEEEEeCCCCeEEEEeeeEEEEccCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999998899


Q ss_pred             ceeeCCCCcceeeehHHHHHHHHHHHh
Q 024108          241 PWVSLPKGKGIKLSIIEEARKRQALAT  267 (272)
Q Consensus       241 p~Islp~~~gi~~~~~e~~~~~~~~~~  267 (272)
                      |||+||+++|||+|++|||++++++.+
T Consensus       234 p~isLp~~~gi~~~~~e~r~~~~~~~~  260 (261)
T PLN00036        234 PWISLPKGKGIKLSIIEEARKRLAAGQ  260 (261)
T ss_pred             eeEeCcCCCCcccchHHHHHHhhhhhc
Confidence            999999999999999999999998764

>PTZ00118 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PTZ00223 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PRK04313 30S ribosomal protein S4e; Validated Back     alignment and domain information
>COG1471 RPS4A Ribosomal protein S4E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0378 consensus 40S ribosomal protein S4 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF00900 Ribosomal_S4e: Ribosomal family S4e; InterPro: IPR013845 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PF08071 RS4NT: RS4NT (NUC023) domain; InterPro: IPR013843 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes Back     alignment and domain information
>smart00363 S4 S4 RNA-binding domain Back     alignment and domain information
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif Back     alignment and domain information
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA Back     alignment and domain information
>PF13275 S4_2: S4 domain; PDB: 1P9K_A Back     alignment and domain information
>PRK11507 ribosome-associated protein; Provisional Back     alignment and domain information
>TIGR01018 rpsD_arch ribosomal protein S4(archaeal type)/S9(eukaryote cytosolic type) Back     alignment and domain information
>PTZ00155 40S ribosomal protein S9; Provisional Back     alignment and domain information
>PRK04051 rps4p 30S ribosomal protein S4P; Validated Back     alignment and domain information
>PLN00189 40S ribosomal protein S9; Provisional Back     alignment and domain information
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type Back     alignment and domain information
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic Back     alignment and domain information
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family Back     alignment and domain information
>PRK05327 rpsD 30S ribosomal protein S4; Validated Back     alignment and domain information
>CHL00113 rps4 ribosomal protein S4; Reviewed Back     alignment and domain information
>TIGR03069 PS_II_S4 photosystem II S4 domain protein Back     alignment and domain information
>TIGR00478 tly hemolysin TlyA family protein Back     alignment and domain information
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair] Back     alignment and domain information
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated Back     alignment and domain information
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional Back     alignment and domain information
>PRK05912 tyrosyl-tRNA synthetase; Validated Back     alignment and domain information
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional Back     alignment and domain information
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional Back     alignment and domain information
>PTZ00194 60S ribosomal protein L26; Provisional Back     alignment and domain information
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK10475 23S rRNA pseudouridine synthase F; Provisional Back     alignment and domain information
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional Back     alignment and domain information
>PRK12281 rplX 50S ribosomal protein L24; Reviewed Back     alignment and domain information
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional Back     alignment and domain information
>CHL00141 rpl24 ribosomal protein L24; Validated Back     alignment and domain information
>PRK13354 tyrosyl-tRNA synthetase; Provisional Back     alignment and domain information
>PRK00004 rplX 50S ribosomal protein L24; Reviewed Back     alignment and domain information
>PLN00051 RNA-binding S4 domain-containing protein; Provisional Back     alignment and domain information
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG2302 Uncharacterized conserved protein, contains S4-like domain [Function unknown] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query272
3iz6_D265 Localization Of The Small Subunit Ribosomal Protein 1e-138
3izb_D261 Localization Of The Small Subunit Ribosomal Protein 1e-101
2xzm_W260 Crystal Structure Of The Eukaryotic 40s Ribosomal S 2e-79
3zey_1273 High-resolution Cryo-electron Microscopy Structure 2e-69
3j20_E243 Promiscuous Behavior Of Proteins In Archaeal Riboso 1e-30
3kbg_A213 Crystal Structure Of The 30s Ribosomal Protein S4e 4e-17
>pdb|3IZ6|D Chain D, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 265 Back     alignment and structure 
Iteration: 1

 Score =  488 bits (1257), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 233/263 (88%), Positives = 248/263 (94%), Gaps = 7/263 (2%)
Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILI+RNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYRE 60
Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VI+ILMQRHVLVD KVRTDKTYPAGFMDV+SIPKT EN+RLLYDTKGRFRL S++DE+AK
Sbjct: 61  VISILMQRHVLVDGKVRTDKTYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDAK 120
Query: 121 ALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFI 180
                  FKLCKVRSVQFGQKGIPY+NTYDGRTIRYPDP+IKANDTIK+DLETNKI +FI
Sbjct: 121 -------FKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPIIKANDTIKIDLETNKIVDFI 173
Query: 181 KFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK 240
           KFDVGNVVMVTGGRN GRVG+IKNREKHKGSFETIH++DALGH+FATRLGNVFTIGKG K
Sbjct: 174 KFDVGNVVMVTGGRNTGRVGVIKNREKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNK 233
Query: 241 PWVSLPKGKGIKLSIIEEARKRQ 263
           PWVSLPKGKGIKLSIIEE RKR 
Sbjct: 234 PWVSLPKGKGIKLSIIEEQRKRD 256
>pdb|3IZB|D Chain D, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 261 Back     alignment and structure
>pdb|2XZM|W Chain W, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 260 Back     alignment and structure
>pdb|3ZEY|1 Chain 1, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 273 Back     alignment and structure
>pdb|3J20|E Chain E, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 243 Back     alignment and structure
>pdb|3KBG|A Chain A, Crystal Structure Of The 30s Ribosomal Protein S4e From Thermoplasma Acidophilum. Northeast Structural Genomics Consortium Target Tar28 Length = 213 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query272
3iz6_D265 40S ribosomal protein S4 (S4E); eukaryotic ribosom 1e-129
3u5c_E261 RP5, S7, YS6, 40S ribosomal protein S4-A; translat 1e-128
2xzm_W260 40S ribosomal protein S4; ribosome, translation; 3 1e-124
3kbg_A213 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2 9e-86
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Length = 265 Back     alignment and structure
 Score =  366 bits (940), Expect = e-129
 Identities = 236/270 (87%), Positives = 253/270 (93%), Gaps = 7/270 (2%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILI+RNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VI+ILMQRHVLVD KVRTDKTYPAGFMDV+SIPKT EN+RLLYDTKGRFRL S++DE+A 
Sbjct: 61  VISILMQRHVLVDGKVRTDKTYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDA- 119

Query: 121 ALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFI 180
                 +FKLCKVRSVQFGQKGIPY+NTYDGRTIRYPDP+IKANDTIK+DLETNKI +FI
Sbjct: 120 ------KFKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPIIKANDTIKIDLETNKIVDFI 173

Query: 181 KFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK 240
           KFDVGNVVMVTGGRN GRVG+IKNREKHKGSFETIH++DALGH+FATRLGNVFTIGKG K
Sbjct: 174 KFDVGNVVMVTGGRNTGRVGVIKNREKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNK 233

Query: 241 PWVSLPKGKGIKLSIIEEARKRQALATSAA 270
           PWVSLPKGKGIKLSIIEE RKR A A +AA
Sbjct: 234 PWVSLPKGKGIKLSIIEEQRKRDAAAQAAA 263
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E Length = 261 Back     alignment and structure
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W Length = 260 Back     alignment and structure
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum} Length = 213 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query272
3iz6_D265 40S ribosomal protein S4 (S4E); eukaryotic ribosom 100.0
3u5c_E261 RP5, S7, YS6, 40S ribosomal protein S4-A; translat 100.0
2xzm_W260 40S ribosomal protein S4; ribosome, translation; 3 100.0
3j20_E243 30S ribosomal protein S4E; archaea, archaeal, KINK 100.0
3kbg_A213 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2 100.0
2cqj_A71 BRMS2, U3 small nucleolar ribonucleoprotein protei 96.79
1p9k_A79 ORF, hypothetical protein; alfal motif, RNA-bindin 96.79
3j20_D180 30S ribosomal protein S4P; archaea, archaeal, KINK 96.09
1c05_A159 Ribosomal protein S4 delta 41; two subdomains, uni 95.86
3bbn_D201 Ribosomal protein S4; small ribosomal subunit, spi 95.82
2vqe_D209 30S ribosomal protein S4; tRNA-binding, rRNA-bindi 95.23
3u5c_J197 40S ribosomal protein S9-A; translation, ribosome, 95.08
2xzm_D181 Ribosomal protein S4 containing protein; ribosome, 95.01
1dm9_A133 Hypothetical 15.5 KD protein in MRCA-PCKA intergen 95.01
1ksk_A234 Ribosomal small subunit pseudouridine synthase A; 94.78
3r8n_D205 30S ribosomal protein S4; protein biosynthesis, RN 94.53
2do3_A69 Transcription elongation factor SPT5; KOW motif, s 94.41
2ckk_A127 KIN17; beta barrel, ribosomal protein, ribonucleop 94.39
1vio_A243 Ribosomal small subunit pseudouridine synthase A; 94.11
3dh3_A290 Ribosomal large subunit pseudouridine synthase F; 93.42
2k6p_A92 Uncharacterized protein HP_1423; alpha-L motif, RN 93.18
1v9f_A325 Ribosomal large subunit pseudouridine synthase D; 91.56
2ktl_A164 Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA s 91.32
3iz6_C195 40S ribosomal protein S9 (S4P); eukaryotic ribosom 90.99
2jan_A432 Tyrosyl-tRNA synthetase; protein biosynthesis, ami 90.62
3hp7_A291 Hemolysin, putative; structural genomics, APC64019 89.96
1h3f_A432 Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA sy 88.53
1jil_A420 Tyrrs, tyrosyl-tRNA synthetase; truncation, based 84.96
1vq8_T120 50S ribosomal protein L24P; ribosome 50S, protein- 83.88
3u5e_Y127 L33, YL33, 60S ribosomal protein L26-A; translatio 83.83
3j21_U121 50S ribosomal protein L24P; archaea, archaeal, KIN 83.65
1nz9_A58 Transcription antitermination protein NUSG; transc 83.47
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
Probab=100.00  E-value=1.6e-121  Score=838.52  Aligned_cols=264  Identities=90%  Similarity=1.412  Sum_probs=199.3

Q ss_pred             CCCCcccccccccCCCceecccccceeccCCCCCCCCCcccchHHHHHHhhhcccccHHHHHHHHhCceEEECCEEeccc
Q 024108            1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDK   80 (272)
Q Consensus         1 MarG~kkHlKRl~AP~~W~i~kk~~~~a~kpspGPH~~~~slPL~i~LRd~LkyA~t~rEak~Il~~g~V~VDGkvr~D~   80 (272)
                      |||||++|||||+||+||||+||+++|||+||||||++++||||++||||+|+||+|++||++||+||+|+||||||||+
T Consensus         1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rpspGPHkl~eslPL~i~LRd~LkyA~t~~EakkIl~q~~VkVDGkvrtD~   80 (265)
T 3iz6_D            1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYREVISILMQRHVLVDGKVRTDK   80 (265)
T ss_dssp             ------------------------------------------CHHHHHHHHHTTSSCSSSTHHHHHTTCCEETTEECCCT
T ss_pred             CCCCcccccccccCCcccccccccceeccCCCCCCCcchhheeeHHHhhhhhcccccHHHHHHHHHCCcEEECCEEeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcceeEEEeccCCceEEEEEcCCCceEEEEcChHhHhhhhccceeeEEEEEeEEEeeCCceEEEccCCeeeecCCCC
Q 024108           81 TYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKALILLFQFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPL  160 (272)
Q Consensus        81 k~PvG~mDVIsI~kt~e~yRvl~d~kgrf~l~~I~~eEa~~~~~~~~~KLcKV~~k~~~~~g~~ql~~hDGrni~~~d~~  160 (272)
                      +||||||||||||+|||+|||+||++|+|.+|+|++|||+       ||||||++|+++++|+|||+|||||||+||||.
T Consensus        81 ~~PvG~MDVIsI~kt~e~fRll~D~kGrf~l~~I~~eEA~-------~KLcKV~~k~~~~~G~pql~tHDGrti~~~dp~  153 (265)
T 3iz6_D           81 TYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDAK-------FKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPI  153 (265)
T ss_dssp             TCCCCTTCEEECCSSCCEEEEEECTTSCEEEEEECHHHHT-------CEEEEEEEEECCSSSCCEEEETTSCCCBSCSSC
T ss_pred             CCCCcEEEEEEEcCCCCEEEEEECCCCcEEEEECChHHcc-------eEEEEEEEEEEccCCceEEEeecceEEecCCCC
Confidence            9999999999999999999999999999999999999999       999999999999999999999999999999999


Q ss_pred             cccCCeEEEecCCCceeeEEeecCCcEEEEECCCcceeEEEEEeEEEecCCccEEEEEcCCCCeEeEeeceEEEEccCCC
Q 024108          161 IKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTK  240 (272)
Q Consensus       161 ik~~Dtv~i~l~~~kI~~~ikf~~G~~~~v~gG~n~G~vG~I~~i~~~~~s~~~V~i~d~~g~~F~T~~~~vfvIGk~~k  240 (272)
                      ||+||||+||||+++|+|||||++||+||||||+|+|++|+|++|++|+|||++||++|++|++|+|+++||||||++++
T Consensus       154 ik~~DTv~idl~~~kI~d~ikfe~Gnl~mvtgG~n~GriG~I~~ie~~~gs~~iV~vkd~~g~~F~T~~~nvfvIGk~~k  233 (265)
T 3iz6_D          154 IKANDTIKIDLETNKIVDFIKFDVGNVVMVTGGRNTGRVGVIKNREKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNK  233 (265)
T ss_dssp             CCTTCEEEECSSSCCEEEEECCSTTCEEEECSSSSCSCEEEEEEEECCSSSCCEEEECCCSSCCEEEEGGGEEEEECSSC
T ss_pred             cccCCEEEEECCCCceeeEEEccCCCEEEEEcCCcceEEEEEEEEEEecCCCcEEEEEECCCCeEEEEeCeEEEEccCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999899


Q ss_pred             ceeeCCCCcceeeehHHHHHHHHHHHhhhhc
Q 024108          241 PWVSLPKGKGIKLSIIEEARKRQALATSAAA  271 (272)
Q Consensus       241 p~Islp~~~gi~~~~~e~~~~~~~~~~~~~~  271 (272)
                      ||||||++|||+|+++|||++|++++++++.
T Consensus       234 p~IsLp~~kg~~~~~~eer~~~~~~~~~~~~  264 (265)
T 3iz6_D          234 PWVSLPKGKGIKLSIIEEQRKRDAAAQAAAN  264 (265)
T ss_dssp             CCCCCCCCC----------------------
T ss_pred             eeEeCCCCCceeeehHHhHHHHHHHhhhhcC
Confidence            9999999999999999999999999998763
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E Back     alignment and structure
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W Back     alignment and structure
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum} Back     alignment and structure
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding protein, E.coli, montreal-kingston structural genomics initiative, BSGI; NMR {Escherichia coli} SCOP: d.66.1.6 Back     alignment and structure
>3j20_D 30S ribosomal protein S4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>1c05_A Ribosomal protein S4 delta 41; two subdomains, unique topology, possible helix-turn-helix motif, ribosome; NMR {Geobacillus stearothermophilus} SCOP: d.66.1.2 PDB: 1c06_A 1eg0_A 1qd7_C Back     alignment and structure
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>2vqe_D 30S ribosomal protein S4; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.66.1.2 PDB: 1hnw_D* 1hnx_D* 1hnz_D* 1ibk_D* 1fka_D* 1ibm_D 1xmo_D* 1ibl_D* 1xnq_D* 1xnr_D* 1yl4_G 2b64_D* 2b9m_D* 2b9o_D* 2hgi_G 2hgp_G 2hgr_G 2hhh_D* 1xmq_D* 2j02_D* ... Back     alignment and structure
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D* Back     alignment and structure
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D Back     alignment and structure
>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A Back     alignment and structure
>1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 d.66.1.5 PDB: 1ksl_A 1ksv_A* Back     alignment and structure
>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5 Back     alignment and structure
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens} Back     alignment and structure
>1vio_A Ribosomal small subunit pseudouridine synthase A; structural genomics, lyase; 1.59A {Haemophilus influenzae} SCOP: d.265.1.3 d.66.1.5 Back     alignment and structure
>3dh3_A Ribosomal large subunit pseudouridine synthase F; protein-RNA complex, S4 domain, alpha/beta protein, isomerase, RNA-binding, rRNA processing; HET: FHU; 3.00A {Escherichia coli} Back     alignment and structure
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori} Back     alignment and structure
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A Back     alignment and structure
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4} Back     alignment and structure
>3iz6_C 40S ribosomal protein S9 (S4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis} Back     alignment and structure
>3hp7_A Hemolysin, putative; structural genomics, APC64019, PSI-2, protein STR initiative, midwest center for structural genomics, MCSG; HET: MSE; 1.53A {Streptococcus thermophilus} Back     alignment and structure
>1h3f_A Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase; HET: TYE; 2.00A {Thermus thermophilus} SCOP: c.26.1.1 d.66.1.4 PDB: 1h3e_A* Back     alignment and structure
>1jil_A Tyrrs, tyrosyl-tRNA synthetase; truncation, based inhibitor design, ligase; HET: 485; 2.20A {Staphylococcus aureus} SCOP: c.26.1.1 PDB: 1jij_A* 1jii_A* 1jik_A* Back     alignment and structure
>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ... Back     alignment and structure
>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L 2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 4b6a_Y 1s1i_U 3izc_Y 3izs_Y 3jyw_U Back     alignment and structure
>3j21_U 50S ribosomal protein L24P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query272
d1p9ka_79 Hypothetical protein YbcJ {Escherichia coli [TaxId 97.17
d1vioa258 Pseudouridine synthase RsuA N-terminal domain {Hae 97.09
d1h3fa281 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 97.0
d1kska359 Pseudouridine synthase RsuA N-terminal domain {Esc 96.92
d1c06a_159 Ribosomal protein S4 {Bacillus stearothermophilus 96.78
d1jh3a_99 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 96.73
d1dm9a_104 Heat shock protein 15 kD {Escherichia coli [TaxId: 96.34
d2uubd1208 Ribosomal protein S4 {Thermus thermophilus [TaxId: 96.28
d2gy9d1204 Ribosomal protein S4 {Escherichia coli [TaxId: 562 95.91
d2do3a162 Transcription elongation factor SPT5 {Human (Homo 95.22
d1nz9a_58 N-utilization substance G protein NusG, C-terminal 86.42
d1vqot1119 Ribosomal proteins L24 (L24p) {Archaeon Haloarcula 85.59
d1nppa258 N-utilization substance G protein NusG, C-terminal 82.57
>d1p9ka_ d.66.1.6 (A:) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: YbcJ-like
domain: Hypothetical protein YbcJ
species: Escherichia coli [TaxId: 562]

Probab=97.17  E-value=4e-05  Score=56.35  Aligned_cols=59  Identities=17%  Similarity=0.144  Sum_probs=51.5

Q ss_pred             cchHHHHHHhhhcccccHHHHHHHHhCceEEECCEEeccccCCCcceeEEEeccCCceEEEE
Q 024108           41 CLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLL  102 (272)
Q Consensus        41 slPL~i~LRd~LkyA~t~rEak~Il~~g~V~VDGkvr~D~k~PvG~mDVIsI~kt~e~yRvl  102 (272)
                      .+-|.=||-. .+++.+..||++.+.+|.|.|||++.+++.|.|--=|+|+++  |+.++++
T Consensus        20 ~irL~k~L~~-~gl~~Sr~eAk~lI~~G~V~VNG~~~~~p~~~V~~~d~I~vd--G~~i~iv   78 (79)
T d1p9ka_          20 HVELCDLLKL-EGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVSFA--GHSVQVV   78 (79)
T ss_dssp             CCCHHHHHHH-HTSCSSSSTTSHHHHHHHHEETTBCCCCSSCCCCSSEEEEET--TEEEEEE
T ss_pred             cEEHHHHHHH-CCCccCHHHHHHHHHhCCcccCCEEeccccccCCCCCEEEEC--CEEEEEE
Confidence            3667667766 589999999999999999999999999999999989999995  7777765
>d1vioa2 d.66.1.5 (A:0-57) Pseudouridine synthase RsuA N-terminal domain {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1h3fa2 d.66.1.4 (A:352-432) Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1kska3 d.66.1.5 (A:1-59) Pseudouridine synthase RsuA N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1c06a_ d.66.1.2 (A:) Ribosomal protein S4 {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1jh3a_ d.66.1.4 (A:) Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1dm9a_ d.66.1.3 (A:) Heat shock protein 15 kD {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2uubd1 d.66.1.2 (D:2-209) Ribosomal protein S4 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2gy9d1 d.66.1.2 (D:2-205) Ribosomal protein S4 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2do3a1 b.34.5.5 (A:462-523) Transcription elongation factor SPT5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1nz9a_ b.34.5.4 (A:) N-utilization substance G protein NusG, C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1vqot1 b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
>d1nppa2 b.34.5.4 (A:191-248) N-utilization substance G protein NusG, C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure